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- PDB-1e5n: E246C mutant of P fluorescens subsp. cellulosa xylanase A in comp... -
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Open data
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Basic information
Entry | Database: PDB / ID: 1e5n | |||||||||
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Title | E246C mutant of P fluorescens subsp. cellulosa xylanase A in complex with xylopentaose | |||||||||
![]() | ENDO-1,4-BETA-XYLANASE A | |||||||||
![]() | HYDROLASE / GLYCOSYL HYDROLASE / FAMILY 10 / XYLAN DEGRADATION | |||||||||
Function / homology | ![]() cellulose binding / endo-1,4-beta-xylanase activity / endo-1,4-beta-xylanase / xylan catabolic process Similarity search - Function | |||||||||
Biological species | ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Lo Leggio, L. / Jenkins, J.A. / Harris, G.W. / Pickersgill, R.W. | |||||||||
![]() | ![]() Title: X-ray crystallographic study of xylopentaose binding to Pseudomonas fluorescens xylanase A. Authors: Leggio, L.L. / Jenkins, J. / Harris, G.W. / Pickersgill, R.W. #1: ![]() Title: Xylanase-Oligosaccharide Interactions Studied by a Competitive Enzyme Assay Authors: Lo Leggio, L. / Pickersgill, R.W. #2: ![]() Title: Refined Crystal Structure of the Catalytic Domain of Xylanase a from Pseudomonas Fluorescens at 1.8 Angstrom Resolution Authors: Harris, G.W. / Jenkins, J.A. / Connerton, I. / Pickersgill, R.W. #3: ![]() Title: Structure of the Catalytic Core of the Family F Xylanase from Pseudomonas Fluorescens and Identification of the Xylopentaose-Binding Sites Authors: Harris, G.W. / Jenkins, J.A. / Connerton, I. / Cummings, N. / Lo Leggio, L. / Scott, M. / Hazlewood, G.P. / Laurie, J.I. / Gilbert, H.J. / Pickersgill, R.W. | |||||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 135.4 KB | Display | ![]() |
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PDB format | ![]() | 107.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 781.9 KB | Display | ![]() |
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Full document | ![]() | 791.5 KB | Display | |
Data in XML | ![]() | 16.5 KB | Display | |
Data in CIF | ![]() | 24.2 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1clxS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.997297, 0.059884, 0.042586), Vector: |
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Components
#1: Protein | Mass: 38548.609 Da / Num. of mol.: 2 / Fragment: CATALYTIC DOMAIN RESIDUES 264-611 / Mutation: YES Source method: isolated from a genetically manipulated source Details: TRUNCATED CATALYTIC DOMAIN, AA 264-611 / Source: (gene. exp.) ![]() ![]() ![]() #2: Polysaccharide | Source method: isolated from a genetically manipulated source #3: Chemical | Compound details | CHAIN A ENGINEERED | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 46.87 % | ||||||||||||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 6.5 Details: HANGING DROP (10 MG/ML OF PROTEIN) WITH A RESERVOIR OF 0.1 M SODIUM CACODYLATE PH 6.5, 200 MM CALCIUM ACETATE, 1 MM BETA-MERCAPTOETHANOL, 14-18% PEG 8000 | ||||||||||||||||||||||||||||||
Crystal grow | *PLUS Method: vapor diffusion, hanging dropDetails: drop consists of equal amounts of protein and reservoir solutions | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 293 K |
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Diffraction source | Source: ![]() |
Detector | Type: MULTIWIRE SIEMENS / Detector: AREA DETECTOR |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 3.2→29.7 Å / Num. obs: 11399 / % possible obs: 98.9 % / Redundancy: 4.3 % / Rsym value: 0.144 |
Reflection shell | Resolution: 3.2→3.4 Å / Redundancy: 3.1 % / Rsym value: 0.364 / % possible all: 95.8 |
Reflection | *PLUS Rmerge(I) obs: 0.144 |
Reflection shell | *PLUS % possible obs: 95.8 % / Rmerge(I) obs: 0.364 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: PDB ENTRY 1CLX Resolution: 3.2→29.7 Å / Rfactor Rfree error: 0.0088 / Data cutoff high absF: 100000 / Data cutoff low absF: 0.1 / Isotropic thermal model: RESTRAINED GROUPED B FACTORS / Cross valid method: THROUGHOUT / σ(F): 0 Details: THE C-TERMINAL RESIDUE (ARG 347) WAS NOT VISIBLE IN THE ELECTRON DENSITY MAP
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Refinement step | Cycle: LAST / Resolution: 3.2→29.7 Å
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Refine LS restraints |
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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